Genetic Diversity and Breeding Signatures for Regional Indica Rice Improvement in Guangdong of Southern China

Rice

Research

Liu Yue¹  Mao Xingxue¹  Pan Dajian¹  Chen Wenfeng¹  Yu Hang¹  Chen Pingli¹  Liu Qing¹  Lyu Shuwei¹  Zhang Jing¹  Li Chen¹  Sun Bingrui¹  Jiang Liqun¹  Fan Zhilan¹ 

[1] Rice Research Institute, Guangdong Academy of Agricultural Sciences, 510640, Guangzhou, China;Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs, 510640, Guangzhou, China;Guangdong Key Laboratory of New Technology in Rice Breeding, 510640, Guangzhou, China;Guangdong Rice Engineering Laboratory, 510640, Guangzhou, China;

关键词: Rice;    Yield improvement;    Resequencing;    Breeding signature;    GWAS;   

DOI  :  10.1186/s12284-023-00642-3

 received in 2023-02-14, accepted in 2023-05-14,  发布年份 2023

来源: Springer

【 摘 要 】

As the pioneer of the Green Revolution in China, Guangdong province witnessed the improvement and spread of semi-dwarf Xian/Indica rice cultivars and possessed diverse rice germplasm of landrace and cultivars. A total of 517 accessions containing a core germplasm of 479 newly sequenced landraces and modern cultivars were used to reveal breeding signatures and key variations for regional genetic improvement of indica rice from Guangdong. Four subpopulations were identified in the collection, which including Ind IV as a novel subpopulation that not covered by previously released accessions. Modern cultivars of subpopulation Ind II were inferred to have less deleterious variations, especially in yield related genes. About 15 Mb genomic segments were identified as potential breeding signatures by cross-population likelihood method (XP-CLR) of modern cultivars and landraces. The selected regions spanning multiple yield related QTLs (quantitative trait locus) which identified by GWAS (genome-wide association studies) of the same population, and specific variations that fixed in modern cultivars of Ind II were characterized. This study highlights genetic differences between traditional landraces and modern cultivars, which revealed the potential molecular basis of regional genetic improvement for Guangdong indica rice from southern China.

【 授权许可】

CC BY   
© The Author(s) 2023

【 图 表 】

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Fig. 4